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Save samtools stats output

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This commit is contained in:
Sofia Stamouli 2022-10-28 14:10:24 +02:00
parent 1bd6dbfe58
commit f87131c7b1
1 changed files with 10 additions and 0 deletions
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10
conf/modules.config
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@ -233,6 +233,16 @@ process {
] ]
} }
withName: SAMTOOLS_STATS {
ext.prefix = { "${meta.id}_${meta.run_accession}" }
publishDir = [
path: { "${params.outdir}/samtools/stats" },
mode: params.publish_dir_mode,
enabled: params.save_hostremoval_unmapped,
pattern: '*stats'
]
}
withName: BBMAP_BBDUK { withName: BBMAP_BBDUK {
ext.args = [ ext.args = [
"entropy=${params.shortread_complexityfilter_entropy}", "entropy=${params.shortread_complexityfilter_entropy}",